Locus 8258

Sequence ID X_DroMel_CAF1
Location 20,521,395 – 20,521,497
Length 102
Max. P 0.912209
window13562 window13563

overview

Window 2

Location 20,521,395 – 20,521,497
Length 102
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 94.12
Mean single sequence MFE -29.68
Consensus MFE -25.01
Energy contribution -25.20
Covariance contribution 0.19
Combinations/Pair 1.18
Mean z-score -2.36
Structure conservation index 0.84
SVM decision value 1.08
SVM RNA-class probability 0.912209
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20521395 102 + 22224390
AAAAUAUUAAUUCGCAGCCUGCUCAUAUCACGCAUACGCAGCGUGGCGCCGUCUCAUUAGGCGCACAACACUUUUGCGGCUAAUUAAAAAAGCAGGCAGACU
................(((((((.....(((((.......)))))(((((.........)))))..........................)))))))..... ( -30.70)
>DroSec_CAF1 89014 102 + 1
AAAAUAUUAAUUCGCAGCCUGCUCAUAUUACGCAUACGCAGCGUGGCGCCGUCUCAUUAGGCGCACAACACUUUUGCGGCUAAUUAAAAAAGCAGGCCGACU
...........(((..(((((((...((((.((...(((((.((((((((.........)))))....)))..)))))))))))......)))))))))).. ( -30.30)
>DroEre_CAF1 87813 102 + 1
AAAAUAUUAAUUCGCUGCCAUCUCAUAUCACGCAUACGCAGCGUGGCGCCGGCUCAUUAGGCGCACAACACUUUUGCGGCUAAUUAAAAAAGAAGGCAGAGU
......((((((.(((((..........(((((.......)))))(((((.........)))))...........))))).))))))............... ( -28.20)
>DroYak_CAF1 90411 102 + 1
AAAAUAUUAAUUCGCACCCGGCGCAUAUCACGCAUACGCAGCGUGGCGCCGUCUCAUUAGGCGCACAACACUUUUGCGGCUAAUUAAAAAUGAAGGCAGACU
.............((...((((((....(((((.......)))))))))))....(((((.((((.........)))).)))))...........))..... ( -29.50)
>consensus
AAAAUAUUAAUUCGCAGCCUGCUCAUAUCACGCAUACGCAGCGUGGCGCCGUCUCAUUAGGCGCACAACACUUUUGCGGCUAAUUAAAAAAGAAGGCAGACU
................(((((((.....(((((.......)))))(((((.........)))))..........................)))))))..... (-25.01 = -25.20 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 20,521,395 – 20,521,497
Length 102
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 94.12
Mean single sequence MFE -32.95
Consensus MFE -28.01
Energy contribution -29.20
Covariance contribution 1.19
Combinations/Pair 1.10
Mean z-score -1.92
Structure conservation index 0.85
SVM decision value 0.63
SVM RNA-class probability 0.804870
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20521395 102 - 22224390
AGUCUGCCUGCUUUUUUAAUUAGCCGCAAAAGUGUUGUGCGCCUAAUGAGACGGCGCCACGCUGCGUAUGCGUGAUAUGAGCAGGCUGCGAAUUAAUAUUUU
.((..((((((((..(((....((((((...((((.(.(((((.........))))))))))))))...)).)))...)))))))).))............. ( -34.00)
>DroSec_CAF1 89014 102 - 1
AGUCGGCCUGCUUUUUUAAUUAGCCGCAAAAGUGUUGUGCGCCUAAUGAGACGGCGCCACGCUGCGUAUGCGUAAUAUGAGCAGGCUGCGAAUUAAUAUUUU
.(.((((((((((..(((....((((((...((((.(.(((((.........))))))))))))))...)).)))...)))))))))))............. ( -36.60)
>DroEre_CAF1 87813 102 - 1
ACUCUGCCUUCUUUUUUAAUUAGCCGCAAAAGUGUUGUGCGCCUAAUGAGCCGGCGCCACGCUGCGUAUGCGUGAUAUGAGAUGGCAGCGAAUUAAUAUUUU
.(.(((((.((((..(((....((((((...((((.(.(((((.........))))))))))))))...)).)))...)))).))))).)............ ( -31.20)
>DroYak_CAF1 90411 102 - 1
AGUCUGCCUUCAUUUUUAAUUAGCCGCAAAAGUGUUGUGCGCCUAAUGAGACGGCGCCACGCUGCGUAUGCGUGAUAUGCGCCGGGUGCGAAUUAAUAUUUU
..((((((.....(((((.((((.((((.........)))).)))))))))(((((((((((.......)))))....)))))))))).))........... ( -30.00)
>consensus
AGUCUGCCUGCUUUUUUAAUUAGCCGCAAAAGUGUUGUGCGCCUAAUGAGACGGCGCCACGCUGCGUAUGCGUGAUAUGAGCAGGCUGCGAAUUAAUAUUUU
...((((((((((..(((....((((((...((((.(.(((((.........))))))))))))))...)).)))...)))))))))).............. (-28.01 = -29.20 +   1.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:59:32 2006